SMTL ID : 1lek.1

Crystal Structure of H-2Kbm3 bound to dEV8

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLU- GLN- TYR- LYS- PHE- TYR- SER- VAL: dEV8(Non-covalent)

GLU-GLN-TYR-LYS-PHE-TYR-SER-VAL.1: 27 residues within 4Å: Chain A: Y.7, V.9, E.24, Y.45, Y.59, R.62, E.63, K.66, N.70, S.73, F.74, V.76, S.77, T.80, Y.84, V.97, Q.114, Y.116, Y.123, T.143, W.147, E.152, R.155, L.156, Y.159, W.167, Y.171 39 PLIP interactions: 39 interactions with chain A Hydrophobic interactions: A:Y.59, A:K.66, A:F.74, A:V.97, A:Y.116, A:Y.123, A:T.143, A:W.147, A:Y.159, A:Y.159, A:Y.159, A:W.167 Hydrogen bonds: A:Y.7, A:E.63, A:K.66, A:N.70, A:N.70, A:S.73, A:S.77, A:T.80, A:T.80, A:E.152, A:E.152, A:R.155, A:R.155, A:Y.171, A:Y.171 Water bridges: A:S.77, A:S.77, A:S.77, A:Y.116, A:Y.116, A:K.146, A:Y.159, A:Y.159 Salt bridges: A:R.62, A:K.66, A:K.146 pi-Stacking: A:F.74

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-FUC.2: 5 residues within 4Å: Chain A: Q.54, K.173, N.174, N.176, A.177 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.54, A:N.174 Water bridges: A:K.173, A:A.177

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 1 residues within 4Å: Chain A: N.86 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 5 residues within 4Å: Chain A: M.23 Chain B: F.30, P.33, I.35, I.64 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Water bridges: B:P.33, B:I.35, A:R.21, A:R.21 Salt bridges: A:R.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luz, J.G. et al., Structural comparison of allogeneic and syngeneic T cell receptor-peptide-major histocompatibility complex complexes: a buried alloreactive mutation subtly alters peptide presentation substantially increasing V(beta) Interactions. J.Exp.Med. (2002)

Release Date

2002-06-26

Peptides

H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, K-B ALPHA CHAIN: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, K-B ALPHA CHAIN

Beta-2-microglobulin

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